Sequence
atgc intronic sequence ATGC exonic sequence...ctgcctacattttatctgaagaatagggaaataatgcgactatattcctacattgacaggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G423972_T02 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os06g29180.1 (Oryza sativa), 3'ss of exon 4
ctgcctacattttatctgaagaatagggaaataatgcga---ctatattcctacattgacaggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
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--gtgtcctattgaaaaaaaaattataagaatgatgccgtattaatatttctatcttgatcaatatttcctttagcatgaaa-acctcattcttccttctcagGATATGGTGGTGATGTCTGGTTCCCCCAACCAGCACCAAAGGATCACCCATGGCGATACATGCCTAATCATGCCATGACCCCTCATATCTCTGGGACTAC
upper sequence: GRMZM2G423972_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G23790.4 (Glycine max), 3'ss of exon 4
ctgcctacattttatctgaagaatagggaaataatgcgactatattcctacattgacaggtactttgtgtaacatggagcatctcattccc--atttct-cagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
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-tccctaagttctgttatgatcctttgttgttgttactattcc-tttttaagttg-caattactaattttgccatcctctttcctaatctcttatttctatagGTTATAGTGGTGATGTTTGGTTCCCACAGCCAGCTCCAAAGGATCATCCATGGCGTTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC
upper sequence: GRMZM2G423972_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G01200.1 (Glycine max), 3'ss of exon 4
--ctgcctacatttt-atctgaagaatagggaaataatgcgactatattcctacattgacaggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
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gtttgttcatattcccatctaagttgttcagaggtggcaaagttttacatcatcattgctaattgttttcttttcctttccaaatttctt---aaatctatagGCTATGGTGGTGATGTTTGGCCCATACAACCAGCTCCAAAGGACCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGCACCAC
upper sequence: GRMZM2G423972_T02 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G01210.4 (Glycine max), 3'ss of exon 4
--ctgcctacatt-ttatctgaagaatagggaaataatgcgactatattcctacattgacaggtactttgtgtaacatggagcatctcattcccatttct-cagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
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ttctgttatgatcctttttttttggttgttgttactattcctttttaagttgcaattgctaatttttttcatcctctttccaaatctctt----atttctatagGTTATAGTGGTGATGTTTGGTTCCCACAACCAGCTCCAAAGGATCATCCATGGCGCTACATGCCAAACCATGCCATGACTCCTCATATTTCTGGTACCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctacattgacaggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
gtgtaac putative branch site (score: 3)
tctcattcccatttct putative PPT
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgcctacattttatctgaagaatagggaaataatgcgactatattcctacattgacaggtactttgtgtaacatggagcatctcattcccatttctcagGATATGGTGGTGATGTGTGGTTCCCACAGCCAGCACCAAAGGATCACCCCTGGCGCTACATGCCTAACCATGCCATGGCCCCTCACATCTCTGGGACTAC
- gcctaca
- -cctacat
- - - - - - - - -gaagaata
- - - - - - - - - - - - - ggaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgga